Published in Nucleic Acids Res on July 01, 2004
NetB, a new toxin that is associated with avian necrotic enteritis caused by Clostridium perfringens. PLoS Pathog (2008) 2.23
Evaluation and comparison of mammalian subcellular localization prediction methods. BMC Bioinformatics (2006) 2.11
Improving the accuracy of protein secondary structure prediction using structural alignment. BMC Bioinformatics (2006) 1.66
LocateP: genome-scale subcellular-location predictor for bacterial proteins. BMC Bioinformatics (2008) 1.64
Computational analysis of the human HSPH/HSPA/DNAJ family and cloning of a human HSPH/HSPA/DNAJ expression library. Cell Stress Chaperones (2008) 1.30
An SVM-based system for predicting protein subnuclear localizations. BMC Bioinformatics (2005) 1.24
PredSL: a tool for the N-terminal sequence-based prediction of protein subcellular localization. Genomics Proteomics Bioinformatics (2006) 1.20
ESLpred2: improved method for predicting subcellular localization of eukaryotic proteins. BMC Bioinformatics (2008) 1.07
Protein-protein interaction as a predictor of subcellular location. BMC Syst Biol (2009) 1.01
Protein localization as a principal feature of the etiology and comorbidity of genetic diseases. Mol Syst Biol (2011) 1.01
Influence relevance voting: an accurate and interpretable virtual high throughput screening method. J Chem Inf Model (2009) 1.00
Protein subcellular relocalization in the evolution of yeast singleton and duplicate genes. Genome Biol Evol (2009) 0.99
Towards defining the nuclear proteome. Genome Biol (2008) 0.98
PA-GOSUB: a searchable database of model organism protein sequences with their predicted Gene Ontology molecular function and subcellular localization. Nucleic Acids Res (2005) 0.97
A data mining approach for classifying DNA repair genes into ageing-related or non-ageing-related. BMC Genomics (2011) 0.93
PhosphoregDB: the tissue and sub-cellular distribution of mammalian protein kinases and phosphatases. BMC Bioinformatics (2006) 0.91
Transgenic, fluorescent Leishmania mexicana allow direct analysis of the proteome of intracellular amastigotes. Mol Cell Proteomics (2008) 0.89
Eukaryote-wide sequence analysis of mitochondrial β-barrel outer membrane proteins. BMC Genomics (2011) 0.87
Validating subcellular localization prediction tools with mycobacterial proteins. BMC Bioinformatics (2009) 0.84
Interleukin-4-inducing principle from Schistosoma mansoni eggs contains a functional C-terminal nuclear localization signal necessary for nuclear translocation in mammalian cells but not for its uptake. Infect Immun (2011) 0.84
Elucidation of the outer membrane proteome of Salmonella enterica serovar Typhimurium utilising a lipid-based protein immobilization technique. BMC Microbiol (2010) 0.84
Evolutionary history of human disease genes reveals phenotypic connections and comorbidity among genetic diseases. Sci Rep (2012) 0.82
Predicting the outer membrane proteome of Pasteurella multocida based on consensus prediction enhanced by results integration and manual confirmation. BMC Bioinformatics (2012) 0.81
PSI: a comprehensive and integrative approach for accurate plant subcellular localization prediction. PLoS One (2013) 0.80
A folding pathway-dependent score to recognize membrane proteins. PLoS One (2011) 0.76
The Ensembl genome database project. Nucleic Acids Res (2002) 40.87
The InterPro database, an integrated documentation resource for protein families, domains and functional sites. Nucleic Acids Res (2001) 24.45
Automated genome sequence analysis and annotation. Bioinformatics (1999) 13.92
Functional and structural genomics using PEDANT. Bioinformatics (2001) 6.10
Genotator: a workbench for sequence annotation. Genome Res (1997) 5.20
MAGPIE: automated genome interpretation. Trends Genet (1996) 4.01
Predicting subcellular localization of proteins using machine-learned classifiers. Bioinformatics (2004) 3.56
Functional annotation of proteomic sequences based on consensus of sequence and structural analysis. Brief Bioinform (2002) 1.53
The GAIA software framework for genome annotation. Pac Symp Biocomput (1998) 0.98
PHAST: a fast phage search tool. Nucleic Acids Res (2011) 19.09
DrugBank 3.0: a comprehensive resource for 'omics' research on drugs. Nucleic Acids Res (2010) 13.68
HMDB: the Human Metabolome Database. Nucleic Acids Res (2007) 13.38
BASys: a web server for automated bacterial genome annotation. Nucleic Acids Res (2005) 13.30
Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2009) 12.51
HMDB: a knowledgebase for the human metabolome. Nucleic Acids Res (2008) 11.23
Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2010) 10.97
HMDB 3.0--The Human Metabolome Database in 2013. Nucleic Acids Res (2012) 9.21
Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2011) 8.62
Circular genome visualization and exploration using CGView. Bioinformatics (2004) 7.78
DrugBank 4.0: shedding new light on drug metabolism. Nucleic Acids Res (2013) 6.73
MetaboAnalyst: a web server for metabolomic data analysis and interpretation. Nucleic Acids Res (2009) 5.70
MetaboAnalyst 2.0--a comprehensive server for metabolomic data analysis. Nucleic Acids Res (2012) 5.68
The human serum metabolome. PLoS One (2011) 5.55
Overview of BioCreative II gene normalization. Genome Biol (2008) 5.05
Rapid and accurate calculation of protein 1H, 13C and 15N chemical shifts. J Biomol NMR (2003) 4.39
The CyberCell Database (CCDB): a comprehensive, self-updating, relational database to coordinate and facilitate in silico modeling of Escherichia coli. Nucleic Acids Res (2004) 4.29
SuperPose: a simple server for sophisticated structural superposition. Nucleic Acids Res (2004) 4.09
VADAR: a web server for quantitative evaluation of protein structure quality. Nucleic Acids Res (2003) 3.95
RefDB: a database of uniformly referenced protein chemical shifts. J Biomol NMR (2003) 3.68
Understanding PubMed user search behavior through log analysis. Database (Oxford) (2009) 3.27
SMPDB: The Small Molecule Pathway Database. Nucleic Acids Res (2009) 3.18
A simple method to predict protein flexibility using secondary chemical shifts. J Am Chem Soc (2005) 3.15
The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text. BMC Bioinformatics (2011) 3.03
PubTator: a web-based text mining tool for assisting biocuration. Nucleic Acids Res (2013) 3.02
Web-based inference of biological patterns, functions and pathways from metabolomic data using MetaboAnalyst. Nat Protoc (2011) 3.00
DNorm: disease name normalization with pairwise learning to rank. Bioinformatics (2013) 2.83
OpenDMAP: an open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression. BMC Bioinformatics (2008) 2.81
The human urine metabolome. PLoS One (2013) 2.78
Recommending MeSH terms for annotating biomedical articles. J Am Med Inform Assoc (2011) 2.77
BioC: a minimalist approach to interoperability for biomedical text processing. Database (Oxford) (2013) 2.69
PolySearch: a web-based text mining system for extracting relationships between human diseases, genes, mutations, drugs and metabolites. Nucleic Acids Res (2008) 2.63
SHIFTX2: significantly improved protein chemical shift prediction. J Biomol NMR (2011) 2.47
MSEA: a web-based tool to identify biologically meaningful patterns in quantitative metabolomic data. Nucleic Acids Res (2010) 2.32
BioSpider: a web server for automating metabolome annotations. Pac Symp Biocomput (2007) 2.32
Applications of machine learning in cancer prediction and prognosis. Cancer Inform (2007) 2.31
Overview of the BioCreative III Workshop. BMC Bioinformatics (2011) 2.31
MetPA: a web-based metabolomics tool for pathway analysis and visualization. Bioinformatics (2010) 2.26
MetaboMiner--semi-automated identification of metabolites from 2D NMR spectra of complex biofluids. BMC Bioinformatics (2008) 2.25
Translational biomarker discovery in clinical metabolomics: an introductory tutorial. Metabolomics (2012) 2.18
BioCreative III interactive task: an overview. BMC Bioinformatics (2011) 2.16
PREDITOR: a web server for predicting protein torsion angle restraints. Nucleic Acids Res (2006) 2.00
The human cerebrospinal fluid metabolome. J Chromatogr B Analyt Technol Biomed Life Sci (2008) 1.96
Concept recognition for extracting protein interaction relations from biomedical text. Genome Biol (2008) 1.93
Semi-automatic semantic annotation of PubMed queries: a study on quality, efficiency, satisfaction. J Biomed Inform (2010) 1.91
Evaluation of lexical methods for detecting relationships between concepts from multiple ontologies. Pac Symp Biocomput (2006) 1.90
Accelerating literature curation with text-mining tools: a case study of using PubTator to curate genes in PubMed abstracts. Database (Oxford) (2012) 1.89
tmVar: a text mining approach for extracting sequence variants in biomedical literature. Bioinformatics (2013) 1.87
Intermolecular transmission of superoxide dismutase 1 misfolding in living cells. Proc Natl Acad Sci U S A (2011) 1.82
An overview of the BioCreative 2012 Workshop Track III: interactive text mining task. Database (Oxford) (2013) 1.82
Combined intrinsic and extrinsic neuronal mechanisms facilitate bridging axonal regeneration one year after spinal cord injury. Neuron (2009) 1.76
Multi-platform characterization of the human cerebrospinal fluid metabolome: a comprehensive and quantitative update. Genome Med (2012) 1.74
METAGENassist: a comprehensive web server for comparative metagenomics. Nucleic Acids Res (2012) 1.70
Accurate prediction of protein torsion angles using chemical shifts and sequence homology. Magn Reson Chem (2006) 1.66
Improving the accuracy of protein secondary structure prediction using structural alignment. BMC Bioinformatics (2006) 1.66
BacMap: an interactive picture atlas of annotated bacterial genomes. Nucleic Acids Res (2005) 1.65
Application of the random coil index to studying protein flexibility. J Biomol NMR (2007) 1.60
SR4GN: a species recognition software tool for gene normalization. PLoS One (2012) 1.57
Recommendations of the wwPDB NMR Validation Task Force. Structure (2013) 1.57
First-trimester metabolomic detection of late-onset preeclampsia. Am J Obstet Gynecol (2012) 1.52
Automated bacterial genome analysis and annotation. Curr Opin Microbiol (2006) 1.52
PlasMapper: a web server for drawing and auto-annotating plasmid maps. Nucleic Acids Res (2004) 1.49
YMDB: the Yeast Metabolome Database. Nucleic Acids Res (2011) 1.48
INMEX--a web-based tool for integrative meta-analysis of expression data. Nucleic Acids Res (2013) 1.48
NMR: prediction of protein flexibility. Nat Protoc (2006) 1.45
Extensive spinal decussation and bilateral termination of cervical corticospinal projections in rhesus monkeys. J Comp Neurol (2009) 1.39
ECMDB: the E. coli Metabolome Database. Nucleic Acids Res (2012) 1.38
Predictive models for breast cancer susceptibility from multiple single nucleotide polymorphisms. Clin Cancer Res (2004) 1.33
Improving links between literature and biological data with text mining: a case study with GEO, PDB and MEDLINE. Database (Oxford) (2012) 1.32
T3DB: a comprehensively annotated database of common toxins and their targets. Nucleic Acids Res (2009) 1.32
Large-scale event extraction from literature with multi-level gene normalization. PLoS One (2013) 1.30
Endogenous neurogenesis replaces oligodendrocytes and astrocytes after primate spinal cord injury. J Neurosci (2006) 1.30
SMPDB 2.0: big improvements to the Small Molecule Pathway Database. Nucleic Acids Res (2013) 1.29
NT-3 gene delivery elicits growth of chronically injured corticospinal axons and modestly improves functional deficits after chronic scar resection. Exp Neurol (2003) 1.27
Extraction of data deposition statements from the literature: a method for automatically tracking research results. Bioinformatics (2011) 1.27
BioCreative-2012 virtual issue. Database (Oxford) (2012) 1.26
Association of DNA repair and steroid metabolism gene polymorphisms with clinical late toxicity in patients treated with conformal radiotherapy for prostate cancer. Clin Cancer Res (2006) 1.24
The COMBREX project: design, methodology, and initial results. PLoS Biol (2013) 1.24
Fibrinogen inhibits neurite outgrowth via beta 3 integrin-mediated phosphorylation of the EGF receptor. Proc Natl Acad Sci U S A (2007) 1.22
Prediction of skeletal muscle and fat mass in patients with advanced cancer using a metabolomic approach. J Nutr (2011) 1.20
IGF-I gene delivery promotes corticospinal neuronal survival but not regeneration after adult CNS injury. Exp Neurol (2008) 1.19
A survey of current trends in computational drug repositioning. Brief Bioinform (2015) 1.18
FRED (a Framework for Reconstructing Epidemic Dynamics): an open-source software system for modeling infectious diseases and control strategies using census-based populations. BMC Public Health (2013) 1.18
Extracting Rx information from clinical narrative. J Am Med Inform Assoc (2010) 1.14
Mutations in POFUT1, encoding protein O-fucosyltransferase 1, cause generalized Dowling-Degos disease. Am J Hum Genet (2013) 1.13
ADHD-200 Global Competition: diagnosing ADHD using personal characteristic data can outperform resting state fMRI measurements. Front Syst Neurosci (2012) 1.12
The RCI server: rapid and accurate calculation of protein flexibility using chemical shifts. Nucleic Acids Res (2007) 1.11
A context-blocks model for identifying clinical relationships in patient records. BMC Bioinformatics (2011) 1.10
Checkers is solved. Science (2007) 1.10
Semantic role labeling for protein transport predicates. BMC Bioinformatics (2008) 1.10
Metabolomics and first-trimester prediction of early-onset preeclampsia. J Matern Fetal Neonatal Med (2012) 1.09
Phenol-Explorer 2.0: a major update of the Phenol-Explorer database integrating data on polyphenol metabolism and pharmacokinetics in humans and experimental animals. Database (Oxford) (2012) 1.09
Click-words: learning to predict document keywords from a user perspective. Bioinformatics (2010) 1.09
Probing the structural determinants of type II' beta-turn formation in peptides and proteins. J Am Chem Soc (2002) 1.08